The holistic study of the keystone biomolecules by applied genomics is one of the intellectual products of the current molecular biology revolution. These applied genomics technologies (transcriptomics, proteomics, and metabolomics) aim at analyzing the components of a cell in its entirety and have, together with the developments in computing, ushered in a new era in scientific methodology for the life sciences. Genomics technologies have mainly been set up and further developed by the pharmaceutical industry, but will also be invaluable to the food industry. Only recently, the first papers about nutrigenomics and the application of genomics in nutrition science and food technology have appeared. In this review, we briefly explain the essence of the various applied genomics technologies, and focus on the impact that these technologies will have in the food industry.